flowchart TD A[cBioPortal] --> B[TCGA clinical data] A --> C[TCGA expression data] %% Malta et al. before mRNAsi X[Malta et al. study] --> D[mRNAsi stemness index] %% Data cleanup after B, C, and D B --> Bclean[Data cleanup] C --> Cclean[Data cleanup] D --> Dclean[Data cleanup] %% Data merge (data join) Bclean --> DM[Data merge] Cclean --> DM Dclean --> DM %% After data merge: data augmentation DM --> E[Data augmentation] E --> F[Descriptive summary] E --> G[Correlation analysis] G --> H[mRNAsi] G --> I[stage/grade] E --> J[Survival modeling] J --> K[Overall Survival] J --> L[Disease Free Survival] F --> M[Plots & tables] H --> M I --> M K --> M L --> M %% Styling: white background, black text style A fill:#ffffff,stroke:#000000,color:#000000 style B fill:#ffffff,stroke:#000000,color:#000000 style C fill:#ffffff,stroke:#000000,color:#000000 style X fill:#ffffff,stroke:#000000,color:#000000 style D fill:#ffffff,stroke:#000000,color:#000000 style Bclean fill:#ffffff,stroke:#000000,color:#000000 style Cclean fill:#ffffff,stroke:#000000,color:#000000 style Dclean fill:#ffffff,stroke:#000000,color:#000000 style DM fill:#ffffff,stroke:#000000,color:#000000 style E fill:#ffffff,stroke:#000000,color:#000000 style F fill:#ffffff,stroke:#000000,color:#000000 style G fill:#ffffff,stroke:#000000,color:#000000 style H fill:#ffffff,stroke:#000000,color:#000000 style I fill:#ffffff,stroke:#000000,color:#000000 style J fill:#ffffff,stroke:#000000,color:#000000 style K fill:#ffffff,stroke:#000000,color:#000000 style L fill:#ffffff,stroke:#000000,color:#000000 style M fill:#ffffff,stroke:#000000,color:#000000